Sequence
atgc intronic sequence ATGC exonic sequenceACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaagtatcaaatacacacatacgcttaagagactgcaaaatcttctgttgatgtgtatatcaatgattaggaaattgtctttgaatgtttttttcctgcag
Basic information
species | Glycine max |
transcript | GLYMA05G05460.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G05460.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
ACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaagt-atcaaatacacacatacgcttaagagactgcaaaatcttctgttgatgtgtatatcaatgattaggaaattgtctttgaatgtttttttcctgcag------------------------
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ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataata-taacagaaaaaatgtacacaatagttattatcatttttactcttttttgtttgttgttgtag
upper sequence: GLYMA05G05460.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G07440.1 (Arabidopsis thaliana), 5'ss of exon 3
-------------------------ACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaag--tatcaaatacacacatacgcttaagagactgcaaaatcttctgttgat-----gtgtatatcaatgattagga--aattgtctttgaatgtttttttcctgcag------------------------------------------------
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TCCTGATATGGGCACTAACGCTCAAACCATGGCTTGGATTCTTGATGAGTACTCCAAGTTTCATGGTCATTCCCCTGCTGTTGTCACTGGAAAGCCCATTgtaaggcttttaagattttggttatatcattctgagtccggaatctgttgtttattctatggatgttttcttgatttgaattaattcgatgtttctatgtgattaccatagttttgagctttttggtatagaagtaactgttggatcactttggtgtag
upper sequence: GLYMA05G05460.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv00s1491g00010.t01 (Vitis vinifera), 5'ss of exon 2
ACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaagtatcaaatacacacatacgcttaagagactgcaaaatcttctgttgatgtgtatatcaatgattaggaaattgtctttgaatgtttttttcctgcag
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ACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATTgtaagtatcaaggagggagagg-----aaaccagtggtcaatatact-tcgaattgaaggccaatgtccacccaaattattctgcattttag----------
upper sequence: GLYMA05G05460.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ06181 (Selaginella moellendorffii), 5'ss of exon 4
ACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaagtatcaaatacacacatacgcttaagagactgcaaaatcttctgttgatgtgtatatcaatgattaggaaattgtctttgaatgtttttttcctgcag
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ACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTTgtaagctt---gtttttttttatgatcatttgattt----gtcctctgatattgtttttgcttctcag----------------------------------
upper sequence: GLYMA05G05460.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ36430 (Selaginella moellendorffii), 5'ss of exon 4
ACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaagtatcaaatacacacatacgcttaagagactgcaaaatcttctgttgatgtgtatatcaatgattaggaaattgtctttgaatgtttttttcctgcag
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ACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTTgtaagctt---gtttttctttctgattatttgattt----gtcctctgatattgtttttgcttctcag----------------------------------Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|9820671|gb|BE556181.1|BE556181EST: TCAAAGTTTCATGGGCATTTCCCCTGCAGTTGTGACCAGG-AAGCCTATT GAAACTTTGAGGT-CGTTGGGG
genomic: TCAAAGTTTCATGGGCATT-CACCTGCAGTTGTGAC-AGGGAAGCCTATTgtaagtatca ... tttcctgcagGAT-CTTGGAGGTTCGTTGGGG
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaagtatcaaatacacacatacgcttaagagactgcaaaatcttctgttgatgtgtatatcaatgattaggaaattgtctttgaatgtttttttcctgcag
- - - - - - - - - - - - - - - - - - - - - - - - CTGCAG